Variant report

Variant	rs7739108
Chromosome Location	chr6:167274978-167274979
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:167274608..167276505-chr6:167368344..167370567,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000249141	Chromatin interaction
ENSG00000026297	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12110773	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2149086	0.81[AFR][1000 genomes]
rs4710125	0.96[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6902549	0.93[ASN][1000 genomes]
rs6938363	1.00[ASN][1000 genomes]
rs73039491	0.86[ASN][1000 genomes]
rs7742136	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7744640	0.93[ASN][1000 genomes]
rs7746934	0.94[YRI][hapmap];0.83[AFR][1000 genomes]
rs7747434	0.82[YRI][hapmap];0.84[AFR][1000 genomes]
rs7761786	0.93[ASN][1000 genomes]
rs7763847	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7767948	0.94[YRI][hapmap];0.91[AFR][1000 genomes]
rs7769381	0.93[ASN][1000 genomes]
rs9348200	0.82[YRI][hapmap];0.80[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3490076	chr6:166727901-167306743	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
2	esv3490077	chr6:166727901-167306743	Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
3	nsv605260	chr6:166984094-167455139	Enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1019381	chr6:167090236-167558598	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
5	nsv538541	chr6:167090236-167558598	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
6	nsv1022866	chr6:167108740-167345629	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv482525	chr6:167151805-167324406	Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv605327	chr6:167185674-167360389	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv1027314	chr6:167194653-167355961	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv538542	chr6:167194653-167355961	Strong transcription Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
11	nsv605332	chr6:167198027-167353701	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
12	nsv948634	chr6:167200671-167838993	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
13	nsv605333	chr6:167201033-167321693	Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
14	nsv1016940	chr6:167222633-167289747	Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
15	nsv886942	chr6:167245665-167282950	Bivalent Enhancer Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:167262000-167275000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:167264600-167275000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr6:167266400-167275200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr6:167266600-167275000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr6:167267200-167275400	Weak transcription	Pancreas	Pancrea
6	chr6:167270400-167275400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:167272600-167276600	Active TSS	Brain Anterior Caudate	brain
8	chr6:167273000-167276600	Active TSS	Brain Angular Gyrus	brain
9	chr6:167273800-167275400	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
10	chr6:167273800-167277000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
11	chr6:167274000-167275400	Active TSS	Brain Hippocampus Middle	brain
12	chr6:167274000-167275400	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
13	chr6:167274400-167275000	Active TSS	iPS-20b Cell Line	embryonic stem cell
14	chr6:167274400-167275400	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr6:167274400-167276400	Active TSS	Brain Germinal Matrix	brain
16	chr6:167274800-167275000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:167274800-167275000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
18	chr6:167274800-167275200	Flanking Active TSS	Stomach Smooth Muscle	stomach
19	chr6:167274800-167275400	Active TSS	Brain Substantia Nigra	brain
20	chr6:167274800-167275600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr6:167274800-167275600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell

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